Wait, why don't you just take the old files that are suppose to be updated in the upgrade and compare?
the following list is official from:
http://ubbforums.infopop.com/cgi-bin/ultimatebb.cgi?ubb=get_topic&f=3&t=000553 files that have been changed from all 6.04x
cgi-bin:
cp.cgi
cp_import.cgi
cp_index.cgi
cp_lib.cgi
cp_users.cgi
ubb_edit_post.cgi
ubb_forum.cgi
ubb_friend.cgi
ubb_lib.cgi
ubb_lib2.cgi
ubb_lib_misc.cgi
ubb_lib_posting.cgi
ubb_new_reply.cgi
ubb_new_topic.cgi
ubb_pm.cgi
ubb_profile.cgi
ubb_registration.cgi
ubb_search.cgi
ubb_topic_maint.cgi
ubb_upgrade.cgi
ultimatebb.cgi
variables:
vars_wordlets_email.cgi
vars_wordlets_err.cgi
Templates:
cp_common.pl
cp_display.pl
cp_vars_misc.pl
public_display_profile.pl
public_rating_list.pl
